CytoSaddleSum: a functional enrichment analysis plugin for Cytoscape based on sum-of-weights scores

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Abstract

Summary:CytoSaddleSum provides Cytoscape users with access to the functionality of SaddleSum, a functional enrichment tool based on sum-of-weight scores. It operates by querying SaddleSum locally (using the standalone version) or remotely (through an HTTP request to a web server). The functional enrichment results are shown as a term relationship network, where nodes represent terms and edges show term relationships. Furthermore, query results are written as Cytoscape attributes allowing easy saving, retrieval and integration into network-based data analysis workflows.

Availability:www.ncbi.nlm.nih.gov/CBBresearch/Yu/downloads.html The source code is placed in Public Domain.

Contact:yyu@ncbi.nlm.nih.gov

Supplementary information: Supplementary materials are available at Bioinformatics online.

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